package org.cbioportal.legacy.web;

import com.fasterxml.jackson.databind.ObjectMapper;
import java.util.ArrayList;
import java.util.List;
import org.cbioportal.legacy.model.GenePanelData;
import org.cbioportal.legacy.service.GenePanelService;
import org.cbioportal.legacy.web.config.TestConfig;
import org.cbioportal.legacy.web.parameter.GenePanelDataFilter;
import org.cbioportal.legacy.web.parameter.GenePanelDataMultipleStudyFilter;
import org.cbioportal.legacy.web.parameter.SampleMolecularIdentifier;
import org.hamcrest.Matchers;
import org.junit.Before;
import org.junit.Test;
import org.junit.runner.RunWith;
import org.mockito.Mockito;
import org.springframework.beans.factory.annotation.Autowired;
import org.springframework.boot.test.autoconfigure.web.servlet.WebMvcTest;
import org.springframework.boot.test.mock.mockito.MockBean;
import org.springframework.http.MediaType;
import org.springframework.security.test.context.support.WithMockUser;
import org.springframework.test.context.ContextConfiguration;
import org.springframework.test.context.junit4.SpringJUnit4ClassRunner;
import org.springframework.test.web.servlet.MockMvc;
import org.springframework.test.web.servlet.request.MockMvcRequestBuilders;
import org.springframework.test.web.servlet.result.MockMvcResultMatchers;
import org.springframework.test.web.servlet.setup.MockMvcBuilders;
import org.springframework.web.context.WebApplicationContext;

@RunWith(SpringJUnit4ClassRunner.class)
@WebMvcTest
@ContextConfiguration(classes = {GenePanelDataController.class, TestConfig.class})
public class GenePanelDataControllerTest {

  private static final String TEST_GENE_PANEL_ID_1 = "test_gene_panel_id_1";
  private static final int TEST_INTERNAL_ID_1 = 1;
  private static final String TEST_DESCRIPTION_1 = "test_description_1";
  private static final String TEST_SAMPLE_ID_1 = "test_sample_id_1";
  private static final String TEST_PATIENT_ID_1 = "test_patient_id_1";
  private static final String TEST_STUDY_ID_1 = "test_study_id_1";
  private static final String TEST_MOLECULAR_PROFILE_ID_1 = "test_molecular_profile_id_1";
  private static final int TEST_ENTREZ_GENE_ID_1 = 100;
  private static final String TEST_HUGO_GENE_SYMBOL_1 = "test_hugo_gene_symbol_1";
  private static final int TEST_ENTREZ_GENE_ID_2 = 200;
  private static final String TEST_HUGO_GENE_SYMBOL_2 = "test_hugo_gene_symbol_2";
  private static final String TEST_GENE_PANEL_ID_2 = "test_gene_panel_id_2";
  private static final int TEST_INTERNAL_ID_2 = 2;
  private static final String TEST_DESCRIPTION_2 = "test_description_2";
  private static final String TEST_SAMPLE_ID_2 = "test_sample_id_2";
  private static final String TEST_PATIENT_ID_2 = "test_patient_id_2";
  private static final String TEST_STUDY_ID_2 = "test_study_id_2";
  private static final String TEST_MOLECULAR_PROFILE_ID_2 = "test_molecular_profile_id_2";
  private static final int TEST_ENTREZ_GENE_ID_3 = 300;
  private static final String TEST_HUGO_GENE_SYMBOL_3 = "test_hugo_gene_symbol_3";
  private static final int TEST_ENTREZ_GENE_ID_4 = 400;
  private static final String TEST_HUGO_GENE_SYMBOL_4 = "test_hugo_gene_symbol_4";
  private static final String TEST_SAMPLE_LIST_ID = "test_sample_list_id";

  @Autowired private WebApplicationContext wac;

  @MockBean private GenePanelService genePanelService;

  private ObjectMapper objectMapper = new ObjectMapper();

  private MockMvc mockMvc;

  @Before
  public void setUp() throws Exception {

    Mockito.reset(genePanelService);
    mockMvc = MockMvcBuilders.webAppContextSetup(wac).build();
  }

  @Test
  @WithMockUser
  public void getGenePanelData() throws Exception {

    List<GenePanelData> genePanelDataList = createExampleGenePanelData();

    Mockito.when(genePanelService.getGenePanelData(Mockito.anyString(), Mockito.anyString()))
        .thenReturn(genePanelDataList);

    GenePanelDataFilter genePanelDataFilter = new GenePanelDataFilter();
    genePanelDataFilter.setSampleListId(TEST_SAMPLE_LIST_ID);

    mockMvc
        .perform(
            MockMvcRequestBuilders.post(
                    "/api/molecular-profiles/test_molecular_profile_id/gene-panel-data/fetch")
                .accept(MediaType.APPLICATION_JSON)
                .contentType(MediaType.APPLICATION_JSON)
                .content(objectMapper.writeValueAsString(genePanelDataFilter)))
        .andExpect(MockMvcResultMatchers.status().isOk())
        .andExpect(
            MockMvcResultMatchers.content().contentTypeCompatibleWith(MediaType.APPLICATION_JSON))
        .andExpect(MockMvcResultMatchers.jsonPath("$", Matchers.hasSize(2)))
        .andExpect(
            MockMvcResultMatchers.jsonPath("$[0].molecularProfileId")
                .value(TEST_MOLECULAR_PROFILE_ID_1))
        .andExpect(MockMvcResultMatchers.jsonPath("$[0].sampleId").value(TEST_SAMPLE_ID_1))
        .andExpect(MockMvcResultMatchers.jsonPath("$[0].genePanelId").value(TEST_GENE_PANEL_ID_1))
        .andExpect(MockMvcResultMatchers.jsonPath("$[0].patientId").value(TEST_PATIENT_ID_1))
        .andExpect(MockMvcResultMatchers.jsonPath("$[0].studyId").value(TEST_STUDY_ID_1))
        .andExpect(MockMvcResultMatchers.jsonPath("$[0].profiled").value(true))
        .andExpect(
            MockMvcResultMatchers.jsonPath("$[1].molecularProfileId")
                .value(TEST_MOLECULAR_PROFILE_ID_2))
        .andExpect(MockMvcResultMatchers.jsonPath("$[1].sampleId").value(TEST_SAMPLE_ID_2))
        .andExpect(MockMvcResultMatchers.jsonPath("$[1].genePanelId").doesNotExist())
        .andExpect(MockMvcResultMatchers.jsonPath("$[1].patientId").value(TEST_PATIENT_ID_2))
        .andExpect(MockMvcResultMatchers.jsonPath("$[1].studyId").value(TEST_STUDY_ID_2))
        .andExpect(MockMvcResultMatchers.jsonPath("$[1].profiled").value(true));
  }

  @Test
  @WithMockUser
  public void fetchGenePanelData() throws Exception {

    List<GenePanelData> genePanelDataList = createExampleGenePanelData();

    Mockito.when(genePanelService.fetchGenePanelDataInMultipleMolecularProfiles(Mockito.anyList()))
        .thenReturn(genePanelDataList);

    List<SampleMolecularIdentifier> sampleMolecularIdentifiers = new ArrayList<>();
    SampleMolecularIdentifier sampleMolecularIdentifier1 = new SampleMolecularIdentifier();
    sampleMolecularIdentifier1.setMolecularProfileId(TEST_MOLECULAR_PROFILE_ID_1);
    sampleMolecularIdentifier1.setSampleId(TEST_SAMPLE_ID_1);
    sampleMolecularIdentifiers.add(sampleMolecularIdentifier1);
    SampleMolecularIdentifier sampleMolecularIdentifier2 = new SampleMolecularIdentifier();
    sampleMolecularIdentifier2.setMolecularProfileId(TEST_MOLECULAR_PROFILE_ID_2);
    sampleMolecularIdentifier2.setSampleId(TEST_SAMPLE_ID_2);
    sampleMolecularIdentifiers.add(sampleMolecularIdentifier2);
    GenePanelDataMultipleStudyFilter genePanelDataMultipleStudyFilter =
        new GenePanelDataMultipleStudyFilter();
    genePanelDataMultipleStudyFilter.setSampleMolecularIdentifiers(sampleMolecularIdentifiers);

    mockMvc
        .perform(
            MockMvcRequestBuilders.post("/api/gene-panel-data/fetch")
                .accept(MediaType.APPLICATION_JSON)
                .contentType(MediaType.APPLICATION_JSON)
                .content(objectMapper.writeValueAsString(genePanelDataMultipleStudyFilter)))
        .andExpect(MockMvcResultMatchers.status().isOk())
        .andExpect(
            MockMvcResultMatchers.content().contentTypeCompatibleWith(MediaType.APPLICATION_JSON))
        .andExpect(MockMvcResultMatchers.jsonPath("$", Matchers.hasSize(2)))
        .andExpect(
            MockMvcResultMatchers.jsonPath("$[0].molecularProfileId")
                .value(TEST_MOLECULAR_PROFILE_ID_1))
        .andExpect(MockMvcResultMatchers.jsonPath("$[0].sampleId").value(TEST_SAMPLE_ID_1))
        .andExpect(MockMvcResultMatchers.jsonPath("$[0].genePanelId").value(TEST_GENE_PANEL_ID_1))
        .andExpect(MockMvcResultMatchers.jsonPath("$[0].patientId").value(TEST_PATIENT_ID_1))
        .andExpect(MockMvcResultMatchers.jsonPath("$[0].studyId").value(TEST_STUDY_ID_1))
        .andExpect(MockMvcResultMatchers.jsonPath("$[0].profiled").value(true))
        .andExpect(
            MockMvcResultMatchers.jsonPath("$[1].molecularProfileId")
                .value(TEST_MOLECULAR_PROFILE_ID_2))
        .andExpect(MockMvcResultMatchers.jsonPath("$[1].sampleId").value(TEST_SAMPLE_ID_2))
        .andExpect(MockMvcResultMatchers.jsonPath("$[1].genePanelId").doesNotExist())
        .andExpect(MockMvcResultMatchers.jsonPath("$[1].patientId").value(TEST_PATIENT_ID_2))
        .andExpect(MockMvcResultMatchers.jsonPath("$[1].studyId").value(TEST_STUDY_ID_2))
        .andExpect(MockMvcResultMatchers.jsonPath("$[1].profiled").value(true));
  }

  private List<GenePanelData> createExampleGenePanelData() {

    List<GenePanelData> genePanelDataList = new ArrayList<>();
    GenePanelData genePanelData1 = new GenePanelData();
    genePanelData1.setGenePanelId(TEST_GENE_PANEL_ID_1);
    genePanelData1.setSampleId(TEST_SAMPLE_ID_1);
    genePanelData1.setMolecularProfileId(TEST_MOLECULAR_PROFILE_ID_1);
    genePanelData1.setPatientId(TEST_PATIENT_ID_1);
    genePanelData1.setStudyId(TEST_STUDY_ID_1);
    genePanelData1.setProfiled(true);
    genePanelDataList.add(genePanelData1);
    GenePanelData genePanelData2 = new GenePanelData();
    genePanelData2.setSampleId(TEST_SAMPLE_ID_2);
    genePanelData2.setMolecularProfileId(TEST_MOLECULAR_PROFILE_ID_2);
    genePanelData2.setPatientId(TEST_PATIENT_ID_2);
    genePanelData2.setStudyId(TEST_STUDY_ID_2);
    genePanelData2.setProfiled(true);
    genePanelDataList.add(genePanelData2);
    return genePanelDataList;
  }
}
